Phosphorus in PDB 119d: Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution

Protein crystallography data

The structure of Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution, PDB code: 119d was solved by G.A.Leonard, W.N.Hunter, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 7.00 / 2.25
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 64.840, 35.360, 25.350, 90.00, 92.24, 90.00
R / Rfree (%) n/a / n/a

Phosphorus Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 22;

Binding sites:

The binding sites of Phosphorus atom in the Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution (pdb code 119d). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 22 binding sites of Phosphorus where determined in the Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution, PDB code: 119d:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 22 in 119d

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Phosphorus binding site 1 out of 22 in the Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P2

b:10.9
occ:1.00
P A:DG2 0.0 10.9 1.0
OP2 A:DG2 1.5 14.9 1.0
OP1 A:DG2 1.5 32.9 1.0
O5' A:DG2 1.6 31.0 1.0
O3' A:DC1 1.6 25.3 1.0
C5' A:DG2 2.6 23.6 1.0
C3' A:DC1 2.6 19.9 1.0
MG A:MG25 3.2 7.0 0.5
O A:HOH56 3.2 10.7 1.0
O A:HOH26 3.2 17.9 1.0
C2' A:DC1 3.6 20.8 1.0
C4' A:DG2 3.8 29.8 1.0
O A:HOH140 3.9 92.0 1.0
C4' A:DC1 3.9 22.9 1.0
O A:HOH28 4.0 2.0 1.0
O A:HOH27 4.3 20.3 1.0
C1' A:DC1 4.5 24.3 1.0
O4' A:DC1 4.6 7.7 1.0
O4' A:DG2 4.7 25.8 1.0
C3' A:DG2 4.9 27.8 1.0
O5' A:DC1 4.9 17.9 1.0
C5' A:DC1 5.0 22.1 1.0

Phosphorus binding site 2 out of 22 in 119d

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Phosphorus binding site 2 out of 22 in the Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P3

b:53.1
occ:1.00
P A:DT3 0.0 53.1 1.0
OP2 A:DT3 1.5 25.0 1.0
OP1 A:DT3 1.5 27.8 1.0
O5' A:DT3 1.6 13.8 1.0
O3' A:DG2 1.6 42.0 1.0
C3' A:DG2 2.6 27.8 1.0
C5' A:DT3 2.7 21.3 1.0
C2' A:DG2 3.1 28.2 1.0
C4' A:DT3 3.9 21.6 1.0
C4' A:DG2 4.0 29.8 1.0
C3' A:DT3 4.1 25.1 1.0
C1' A:DG2 4.3 25.5 1.0
O4' A:DT3 4.3 16.9 1.0
O A:HOH36 4.4 35.1 1.0
O A:HOH57 4.5 21.1 1.0
C2' A:DT3 4.6 25.9 1.0
O4' A:DG2 4.7 25.8 1.0

Phosphorus binding site 3 out of 22 in 119d

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Phosphorus binding site 3 out of 22 in the Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P4

b:42.3
occ:1.00
P A:DA4 0.0 42.3 1.0
OP2 A:DA4 1.5 44.8 1.0
OP1 A:DA4 1.5 32.6 1.0
O5' A:DA4 1.6 35.8 1.0
O3' A:DT3 1.6 28.9 1.0
C3' A:DT3 2.7 25.1 1.0
C5' A:DA4 2.7 30.9 1.0
O A:HOH57 3.2 21.1 1.0
C2' A:DT3 3.3 25.9 1.0
O A:HOH58 3.7 20.0 1.0
C4' A:DA4 3.7 34.0 1.0
C8 A:DA4 3.8 10.9 1.0
O A:HOH100 4.0 61.8 1.0
C4' A:DT3 4.0 21.6 1.0
O4' A:DA4 4.1 35.1 1.0
C3' A:DA4 4.1 30.2 1.0
C2' A:DA4 4.2 22.3 1.0
O A:HOH101 4.3 44.3 1.0
N9 A:DA4 4.4 24.9 1.0
C1' A:DT3 4.4 17.1 1.0
C1' A:DA4 4.4 23.8 1.0
N7 A:DA4 4.7 19.9 1.0
O5' A:DT3 4.8 13.8 1.0
O4' A:DT3 4.9 16.9 1.0
C5' A:DT3 5.0 21.3 1.0

Phosphorus binding site 4 out of 22 in 119d

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Phosphorus binding site 4 out of 22 in the Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P5

b:32.2
occ:1.00
P A:DG5 0.0 32.2 1.0
OP2 A:DG5 1.5 13.2 1.0
OP1 A:DG5 1.5 16.5 1.0
O5' A:DG5 1.6 8.2 1.0
O3' A:DA4 1.6 26.7 1.0
C5' A:DG5 2.6 30.6 1.0
C3' A:DA4 2.7 30.2 1.0
C2' A:DA4 3.4 22.3 1.0
C4' A:DG5 3.8 31.6 1.0
O A:HOH98 3.9 61.8 1.0
C4' A:DA4 3.9 34.0 1.0
O A:HOH60 4.0 34.5 1.0
C3' A:DG5 4.2 34.3 1.0
O A:HOH112 4.3 51.8 1.0
O4' A:DG5 4.4 33.0 1.0
C2' A:DG5 4.5 28.0 1.0
C1' A:DA4 4.5 23.8 1.0
O A:HOH61 4.7 19.1 1.0
O4' A:DA4 4.7 35.1 1.0
O A:HOH101 4.8 44.3 1.0
C5' A:DA4 5.0 30.9 1.0

Phosphorus binding site 5 out of 22 in 119d

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Phosphorus binding site 5 out of 22 in the Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P6

b:19.3
occ:1.00
P A:DA6 0.0 19.3 1.0
OP1 A:DA6 1.5 42.8 1.0
OP2 A:DA6 1.5 49.9 1.0
O5' A:DA6 1.6 29.7 1.0
O3' A:DG5 1.6 40.1 1.0
C3' A:DG5 2.6 34.3 1.0
C5' A:DA6 2.7 20.7 1.0
C4' A:DA6 3.7 28.0 1.0
C2' A:DG5 3.7 28.0 1.0
C4' A:DG5 3.8 31.6 1.0
O4' A:DA6 4.0 27.8 1.0
O A:HOH61 4.0 19.1 1.0
C8 A:DA6 4.3 32.1 1.0
O A:HOH146 4.4 36.9 1.0
C3' A:DA6 4.4 19.4 1.0
C1' A:DG5 4.4 23.2 1.0
C2' A:DA6 4.6 27.0 1.0
C5' A:DG5 4.7 30.6 1.0
O4' A:DG5 4.7 33.0 1.0
O5' A:DG5 4.8 8.2 1.0
C1' A:DA6 4.8 28.5 1.0
N9 A:DA6 4.9 34.2 1.0

Phosphorus binding site 6 out of 22 in 119d

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Phosphorus binding site 6 out of 22 in the Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P7

b:38.4
occ:1.00
P A:DT7 0.0 38.4 1.0
OP2 A:DT7 1.5 27.0 1.0
OP1 A:DT7 1.5 37.6 1.0
O3' A:DA6 1.6 20.7 1.0
O5' A:DT7 1.6 21.0 1.0
C5' A:DT7 2.6 21.6 1.0
C3' A:DA6 2.7 19.4 1.0
C2' A:DA6 3.4 27.0 1.0
O A:HOH63 3.8 24.8 1.0
O A:HOH40 3.8 38.3 1.0
C4' A:DT7 3.8 17.6 1.0
C4' A:DA6 4.0 28.0 1.0
O4' A:DT7 4.4 3.7 1.0
C1' A:DA6 4.4 28.5 1.0
C3' A:DT7 4.5 3.9 1.0
O4' A:DA6 4.8 27.8 1.0

Phosphorus binding site 7 out of 22 in 119d

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Phosphorus binding site 7 out of 22 in the Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P8

b:20.2
occ:1.00
P A:DC8 0.0 20.2 1.0
OP2 A:DC8 1.5 16.5 1.0
OP1 A:DC8 1.5 16.8 1.0
O5' A:DC8 1.6 24.5 1.0
O3' A:DT7 1.6 21.9 1.0
C5' A:DC8 2.6 16.0 1.0
C3' A:DT7 2.6 3.9 1.0
C2' A:DT7 3.4 11.4 1.0
O A:HOH37 3.4 2.6 1.0
O A:HOH39 3.6 24.1 1.0
C4' A:DC8 3.8 16.1 1.0
O4' A:DC8 3.8 15.2 1.0
C4' A:DT7 3.9 17.6 1.0
O A:HOH108 4.1 37.9 1.0
C1' A:DT7 4.3 12.6 1.0
O A:HOH64 4.4 43.7 1.0
C3' A:DC8 4.6 24.0 1.0
O4' A:DT7 4.8 3.7 1.0
C5' A:DT7 4.9 21.6 1.0
C1' A:DC8 4.9 29.9 1.0
C2' A:DC8 4.9 24.3 1.0
C6 A:DC8 4.9 20.6 1.0

Phosphorus binding site 8 out of 22 in 119d

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Phosphorus binding site 8 out of 22 in the Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 8 of Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P9

b:19.9
occ:1.00
P A:DT9 0.0 19.9 1.0
OP2 A:DT9 1.5 31.6 1.0
OP1 A:DT9 1.5 25.0 1.0
O3' A:DC8 1.6 24.6 1.0
O5' A:DT9 1.6 25.8 1.0
C5' A:DT9 2.6 21.2 1.0
C3' A:DC8 2.7 24.0 1.0
C2' A:DC8 3.5 24.3 1.0
O A:HOH65 3.7 42.0 1.0
C4' A:DT9 3.9 31.0 1.0
O A:HOH66 3.9 25.4 1.0
C4' A:DC8 4.0 16.1 1.0
C3' A:DT9 4.2 29.0 1.0
O4' A:DT9 4.4 24.9 1.0
O B:HOH92 4.5 31.2 1.0
C1' A:DC8 4.5 29.9 1.0
O B:HOH81 4.7 21.1 1.0
C5' A:DC8 4.8 16.0 1.0
O A:HOH139 4.9 45.1 1.0
O3' A:DT9 4.9 44.6 1.0
O4' A:DC8 4.9 15.2 1.0

Phosphorus binding site 9 out of 22 in 119d

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Phosphorus binding site 9 out of 22 in the Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 9 of Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P10

b:37.5
occ:1.00
P A:DA10 0.0 37.5 1.0
OP1 A:DA10 1.5 41.7 1.0
OP2 A:DA10 1.5 52.3 1.0
O3' A:DT9 1.6 44.6 1.0
O5' A:DA10 1.6 37.4 1.0
C5' A:DA10 2.6 20.9 1.0
C3' A:DT9 2.7 29.0 1.0
C2' A:DT9 3.5 25.7 1.0
C4' A:DT9 3.6 31.0 1.0
C4' A:DA10 3.9 38.6 1.0
O4' A:DA10 4.3 12.8 1.0
O A:HOH142 4.4 41.3 1.0
C1' A:DT9 4.4 15.8 1.0
C5' A:DT9 4.5 21.2 1.0
C3' A:DA10 4.6 40.5 1.0
C2' A:DA10 4.6 38.9 1.0
O4' A:DT9 4.6 24.9 1.0

Phosphorus binding site 10 out of 22 in 119d

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Phosphorus binding site 10 out of 22 in the Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 10 of Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P11

b:14.5
occ:1.00
P A:DC11 0.0 14.5 1.0
OP2 A:DC11 1.5 61.5 1.0
OP1 A:DC11 1.5 51.2 1.0
O5' A:DC11 1.6 52.0 1.0
O3' A:DA10 1.6 52.1 1.0
C5' A:DC11 2.6 42.0 1.0
C3' A:DA10 2.7 40.5 1.0
O A:HOH115 3.5 33.0 1.0
C4' A:DA10 3.7 38.6 1.0
C4' A:DC11 3.8 27.7 1.0
C2' A:DA10 3.8 38.9 1.0
C6 A:DC11 4.0 17.6 1.0
O4' A:DC11 4.2 17.9 1.0
C1' A:DA10 4.3 29.3 1.0
C2' A:DC11 4.3 26.2 1.0
C3' A:DC11 4.4 27.4 1.0
O4' A:DA10 4.5 12.8 1.0
C5 A:DC11 4.6 21.3 1.0
N1 A:DC11 4.7 27.9 1.0
C5' A:DA10 4.7 20.9 1.0
C1' A:DC11 4.8 21.6 1.0

Reference:

G.A.Leonard, W.N.Hunter. Crystal and Molecular Structure of D(Cgtagatctacg) at 2.25 A Resolution. J.Mol.Biol. V. 234 198 1993.
ISSN: ISSN 0022-2836
PubMed: 8230199
DOI: 10.1006/JMBI.1993.1574
Page generated: Fri Sep 25 11:12:21 2020

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